Advanced tools and tutorials
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DNA Nexus takes ages to run a job
- Former User of DNAx Community_47
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How to automatically restart jobs upon "SpotInstanceInterruption"?
- Former User of DNAx Community_51
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How to use swiss army knife with batch file?
- Former User of DNAx Community_27
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How do you run a spark app?
- Former User of DNAx Community_47
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Trouble using $in_prefix and $in_name with swiss-army-knife
- Former User of DNAx Community_41
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How to provide a Struct as an input to a WDL workflow.
- Former User of DNAx Community_18
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Samtools (sometimes) can't find reference
- Permanently deleted user
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I am trying to download data from the UKB RAP by clicking download button. However download speed is only 1000kb/s whereas at my end the VM is setup for 10Gbps. How can I increase download speed?
- Former User of DNAx Community_3
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How to obtain an updated Authorization key (.ukbkey) to download returned data?
- Former User of DNAx Community_48
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Analyzing UK Biobank WES data using SAIGE-GENE+
- Former User of DNAx Community_9
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Error when dx download files from RAP
- Former User of DNAx Community_57
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I am having issues starting a jupyter notebook. I could able to see the notebook running in the monitor section but not where we launched the notebook. Can someone help me how to resolve this?
- Former User of DNAx Community_6
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How the vcf files were formatted and how to process the vcf files.
- Former User of DNAx Community_6
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View saved plots in RStudio on RAP?
- Former User of DNAx Community_57
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Working with Hail outside of JupyterLab
- Former User of DNAx Community_41
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Efficient ways to use Swiss Army Knife
- Former User of DNAx Community_56
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ConnectionPoolTimeoutException while working in JupyterLab
- Former User of DNAx Community_41
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Tools tab not showing RStudio as an option?
- Former User of DNAx Community_57
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Using PLINK GWAS tool on the RAP generates a text output file with many duplicates. How do I get rid of the duplicates?
- Former User of DNAx Community_10
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How can I get data from a DNA Nexus database into another format?
- Former User of DNAx Community_47
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How to submit a large input-json with dx run?
- Former User of DNAx Community_18
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ExecutorLostFailure when trying to write a matrix
- Former User of DNAx Community_22
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JupyterLab Server Connection Error
- Former User of DNAx Community_41
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OS on the computing servers?
- Permanently deleted user
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I submitted a batch of 500 jobs to UKB/RAP. The number of running jobs is always 100 and the rest in waiting. Is this defined by UKB/RAP, or is it changeable?
- Permanently deleted user
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Best alternative to lofreq in Swiss Army Knife?
- Permanently deleted user
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Is there a way to run an R script with a specified environment (snapshot) and instance type?
- Former User of DNAx Community_13
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Performing GWAS on RAP using DX toolkit and swiss-army-knife
- Former User of DNAx Community_28
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I get 'low disk space during this job' warning and my job gets aborted..im using plink via Swiss Army Knife..How can I fix this?
- Former User of DNAx Community_3
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Hello, I have a question regarding launching scripts from the CLI. I submitted a batch script from the CLI. All of my scripts were completed successfully, but the output hasn't been saved. I'm not sure where I'm going wrong. Thanks for your help!
- Former User of DNAx Community_72
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